Diff of the two buildlogs: -- --- b1/build.log 2025-03-04 15:42:26.287977861 +0000 +++ b2/build.log 2025-03-04 15:44:21.202812377 +0000 @@ -1,6 +1,6 @@ I: pbuilder: network access will be disabled during build -I: Current time: Tue Mar 4 03:35:58 -12 2025 -I: pbuilder-time-stamp: 1741102558 +I: Current time: Tue Apr 7 12:05:28 +14 2026 +I: pbuilder-time-stamp: 1775513128 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/trixie-reproducible-base.tgz] I: copying local configuration @@ -26,52 +26,84 @@ dpkg-source: info: applying prefixes.patch I: Not using root during the build. I: Installing the build-deps -I: user script /srv/workspace/pbuilder/4004580/tmp/hooks/D02_print_environment starting +I: user script /srv/workspace/pbuilder/963157/tmp/hooks/D01_modify_environment starting +debug: Running on ionos5-amd64. +I: Changing host+domainname to test build reproducibility +I: Adding a custom variable just for the fun of it... +I: Changing /bin/sh to bash +'/bin/sh' -> '/bin/bash' +lrwxrwxrwx 1 root root 9 Apr 6 22:05 /bin/sh -> /bin/bash +I: Setting pbuilder2's login shell to /bin/bash +I: Setting pbuilder2's GECOS to second user,second room,second work-phone,second home-phone,second other +I: user script /srv/workspace/pbuilder/963157/tmp/hooks/D01_modify_environment finished +I: user script /srv/workspace/pbuilder/963157/tmp/hooks/D02_print_environment starting I: set - BUILDDIR='/build/reproducible-path' - BUILDUSERGECOS='first user,first room,first work-phone,first home-phone,first other' - BUILDUSERNAME='pbuilder1' - BUILD_ARCH='amd64' - DEBIAN_FRONTEND='noninteractive' - DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=20 ' - DISTRIBUTION='trixie' - HOME='/root' - HOST_ARCH='amd64' + BASH=/bin/sh + BASHOPTS=checkwinsize:cmdhist:complete_fullquote:extquote:force_fignore:globasciiranges:globskipdots:hostcomplete:interactive_comments:patsub_replacement:progcomp:promptvars:sourcepath + BASH_ALIASES=() + BASH_ARGC=() + BASH_ARGV=() + BASH_CMDS=() + BASH_LINENO=([0]="12" [1]="0") + BASH_LOADABLES_PATH=/usr/local/lib/bash:/usr/lib/bash:/opt/local/lib/bash:/usr/pkg/lib/bash:/opt/pkg/lib/bash:. + BASH_SOURCE=([0]="/tmp/hooks/D02_print_environment" [1]="/tmp/hooks/D02_print_environment") + BASH_VERSINFO=([0]="5" [1]="2" [2]="37" [3]="1" [4]="release" [5]="x86_64-pc-linux-gnu") + BASH_VERSION='5.2.37(1)-release' + BUILDDIR=/build/reproducible-path + BUILDUSERGECOS='second user,second room,second work-phone,second home-phone,second other' + BUILDUSERNAME=pbuilder2 + BUILD_ARCH=amd64 + DEBIAN_FRONTEND=noninteractive + DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=42 ' + DIRSTACK=() + DISTRIBUTION=trixie + EUID=0 + FUNCNAME=([0]="Echo" [1]="main") + GROUPS=() + HOME=/root + HOSTNAME=i-capture-the-hostname + HOSTTYPE=x86_64 + HOST_ARCH=amd64 IFS=' ' - INVOCATION_ID='7b317830bea54aeba56fa35a11a2855f' - LANG='C' - LANGUAGE='en_US:en' - LC_ALL='C' - MAIL='/var/mail/root' - OPTIND='1' - PATH='/usr/sbin:/usr/bin:/sbin:/bin:/usr/games' - PBCURRENTCOMMANDLINEOPERATION='build' - PBUILDER_OPERATION='build' - PBUILDER_PKGDATADIR='/usr/share/pbuilder' - PBUILDER_PKGLIBDIR='/usr/lib/pbuilder' - PBUILDER_SYSCONFDIR='/etc' - PPID='4004580' - PS1='# ' - PS2='> ' + INVOCATION_ID=2427679a14564f1d83fc7e0ccc813810 + LANG=C + LANGUAGE=et_EE:et + LC_ALL=C + MACHTYPE=x86_64-pc-linux-gnu + MAIL=/var/mail/root + OPTERR=1 + OPTIND=1 + OSTYPE=linux-gnu + PATH=/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path + PBCURRENTCOMMANDLINEOPERATION=build + PBUILDER_OPERATION=build + PBUILDER_PKGDATADIR=/usr/share/pbuilder + PBUILDER_PKGLIBDIR=/usr/lib/pbuilder + PBUILDER_SYSCONFDIR=/etc + PIPESTATUS=([0]="0") + POSIXLY_CORRECT=y + PPID=963157 PS4='+ ' - PWD='/' - SHELL='/bin/bash' - SHLVL='2' - SUDO_COMMAND='/usr/bin/timeout -k 18.1h 18h /usr/bin/ionice -c 3 /usr/bin/nice /usr/sbin/pbuilder --build --configfile /srv/reproducible-results/rbuild-debian/r-b-build.1plJQyQj/pbuilderrc_2be0 --distribution trixie --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/trixie-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.1plJQyQj/b1 --logfile b1/build.log mcaller_1.0.3+git20210624.b415090-3.dsc' - SUDO_GID='110' - SUDO_UID='105' - SUDO_USER='jenkins' - TERM='unknown' - TZ='/usr/share/zoneinfo/Etc/GMT+12' - USER='root' - _='/usr/bin/systemd-run' - http_proxy='http://46.16.76.132:3128' + PWD=/ + SHELL=/bin/bash + SHELLOPTS=braceexpand:errexit:hashall:interactive-comments:posix + SHLVL=3 + SUDO_COMMAND='/usr/bin/timeout -k 24.1h 24h /usr/bin/ionice -c 3 /usr/bin/nice -n 11 /usr/bin/unshare --uts -- /usr/sbin/pbuilder --build --configfile /srv/reproducible-results/rbuild-debian/r-b-build.1plJQyQj/pbuilderrc_WLaP --distribution trixie --hookdir /etc/pbuilder/rebuild-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/trixie-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.1plJQyQj/b2 --logfile b2/build.log mcaller_1.0.3+git20210624.b415090-3.dsc' + SUDO_GID=110 + SUDO_UID=105 + SUDO_USER=jenkins + TERM=unknown + TZ=/usr/share/zoneinfo/Etc/GMT-14 + UID=0 + USER=root + _='I: set' + http_proxy=http://213.165.73.152:3128 I: uname -a - Linux ionos1-amd64 6.1.0-31-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.1.128-1 (2025-02-07) x86_64 GNU/Linux + Linux i-capture-the-hostname 6.12.12+bpo-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.12.12-1~bpo12+1 (2025-02-23) x86_64 GNU/Linux I: ls -l /bin - lrwxrwxrwx 1 root root 7 Nov 22 14:40 /bin -> usr/bin -I: user script /srv/workspace/pbuilder/4004580/tmp/hooks/D02_print_environment finished + lrwxrwxrwx 1 root root 7 Nov 22 2024 /bin -> usr/bin +I: user script /srv/workspace/pbuilder/963157/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy @@ -283,7 +315,7 @@ Get: 160 http://deb.debian.org/debian trixie/main amd64 python3-threadpoolctl all 3.1.0-1 [21.2 kB] Get: 161 http://deb.debian.org/debian trixie/main amd64 python3-sklearn-lib amd64 1.4.2+dfsg-7+b3 [3879 kB] Get: 162 http://deb.debian.org/debian trixie/main amd64 python3-sklearn all 1.4.2+dfsg-7 [2248 kB] -Fetched 142 MB in 10s (13.9 MB/s) +Fetched 142 MB in 6s (25.1 MB/s) Preconfiguring packages ... Selecting previously unselected package libpython3.13-minimal:amd64. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 19802 files and directories currently installed.) @@ -817,8 +849,8 @@ Setting up tzdata (2025a-2) ... Current default time zone: 'Etc/UTC' -Local time is now: Tue Mar 4 15:37:29 UTC 2025. -Universal Time is now: Tue Mar 4 15:37:29 UTC 2025. +Local time is now: Mon Apr 6 22:06:03 UTC 2026. +Universal Time is now: Mon Apr 6 22:06:03 UTC 2026. Run 'dpkg-reconfigure tzdata' if you wish to change it. Setting up unicode-data (15.1.0-1) ... @@ -964,7 +996,11 @@ Building tag database... -> Finished parsing the build-deps I: Building the package -I: Running cd /build/reproducible-path/mcaller-1.0.3+git20210624.b415090/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-buildpackage -us -uc -b && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-genchanges -S > ../mcaller_1.0.3+git20210624.b415090-3_source.changes +I: user script /srv/workspace/pbuilder/963157/tmp/hooks/A99_set_merged_usr starting +Not re-configuring usrmerge for trixie +I: user script /srv/workspace/pbuilder/963157/tmp/hooks/A99_set_merged_usr finished +hostname: Name or service not known +I: Running cd /build/reproducible-path/mcaller-1.0.3+git20210624.b415090/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path" HOME="/nonexistent/second-build" dpkg-buildpackage -us -uc -b && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path" HOME="/nonexistent/second-build" dpkg-genchanges -S > ../mcaller_1.0.3+git20210624.b415090-3_source.changes dpkg-buildpackage: info: source package mcaller dpkg-buildpackage: info: source version 1.0.3+git20210624.b415090-3 dpkg-buildpackage: info: source distribution unstable @@ -1015,17 +1051,17 @@ 1 contigs 4 threads thread finished processing...: -28 observations -28 positions -0 regions with multiple methylated bases -0 observations with skips included -6 observations with too many skips -thread finished processing...: 9 observations 9 positions 0 regions with multiple methylated bases 0 observations with skips included 4 observations with too many skips +thread finished processing...: +28 observations +28 positions +0 regions with multiple methylated bases +0 observations with skips included +6 observations with too many skips Error: could not find sequence for reference contig li thread finished processing...: 16 observations @@ -1043,10 +1079,10 @@ Merging files... Training... ['A', 'A', 'A', 'A', 'A', 'A', 'A', 'A', 'A', 'A'] -[[np.float64(-1.44), np.float64(-5.03), np.float64(1.4449999999999998), np.float64(0.4000000000000001), np.float64(-0.588), np.float64(-0.55), np.float64(7.055265349382997)], [np.float64(-1.4433333333333334), np.float64(-0.020000000000000018), np.float64(-0.0366666666666667), np.float64(-0.5499999999999999), np.float64(0.64), np.float64(-2.71), np.float64(7.055265349382997)], [np.float64(-1.23), np.float64(-1.635), np.float64(-0.24), np.float64(1.1033333333333333), np.float64(-2.215), np.float64(-2.93), np.float64(7.055265349382997)], [np.float64(-0.21), np.float64(0.07500000000000001), np.float64(-1.3083333333333333), np.float64(4.15), np.float64(-0.3), np.float64(-0.21500000000000002), np.float64(7.055265349382997)], [np.float64(-1.355), np.float64(-0.34), np.float64(-1.8633333333333333), np.float64(-1.87), np.float64(-1.2650000000000001), np.float64(-1.22), np.float64(7.055265349382997)], [np.float64(-5.64), np.float64(-3.6), np.float64(-5.13), np.float64(-0.255), np.float64(0.4), np.float64(0.73), np.float64(7.055265349382997)], [np.float64(-1.1400000000000001), np.float64(0.94), np.float64(-4.55), np.float64(2.0), np.float64(-0.34), np.float64(-2.71), np.float64(7.055265349382997)], [np.float64(1.02), np.float64(-2.38), np.float64(0.915), np.float64(0.05), np.float64(1.75), np.float64(0.8875000000000001), np.float64(7.055265349382997)], [np.float64(-0.56), np.float64(-3.505), np.float64(1.02), np.float64(-1.55), np.float64(-0.7139999999999999), np.float64(-0.4825), np.float64(7.055265349382997)], [np.float64(3.49), np.float64(1.3), np.float64(-1.4949999999999999), np.float64(-2.3), np.float64(-1.2), np.float64(-0.62), np.float64(7.055265349382997)]] -['AAATGMGATTT', 'AGTAGMTTGAT', 'ACTTAMCCGGT', 'AGCATMTTTAT', 'GTTATMTGCAA', 'GGTAAMAATTT', 'GTGACMGTTTT', 'GGCTTMTTTTA', 'GGATGMAAGAA', 'ATATTMTGCAT'] -NN general model scores: 1.0,0.875,1.0,0.5,0.5 -Cross validation accuracy: 0.78 (+/- 0.46) +[[np.float64(-0.18999999999999992), np.float64(-1.6799999999999997), np.float64(-2.3), np.float64(0.56), np.float64(-1.41), np.float64(1.48), np.float64(7.055265349382997)], [np.float64(-1.1300000000000001), np.float64(-1.67), np.float64(-1.1), np.float64(-0.5774999999999999), np.float64(0.42), np.float64(1.0225), np.float64(7.055265349382997)], [np.float64(0.0050000000000000044), np.float64(-0.29500000000000004), np.float64(-0.54), np.float64(3.96), np.float64(1.47), np.float64(0.06499999999999995), np.float64(7.055265349382997)], [np.float64(3.255), np.float64(3.925), np.float64(0.03999999999999998), np.float64(-0.15599999999999997), np.float64(-1.01), np.float64(1.3533333333333333), np.float64(7.055265349382997)], [np.float64(-0.07999999999999996), np.float64(-1.3666666666666665), np.float64(0.84), np.float64(-0.5449999999999999), np.float64(-3.22), np.float64(-1.53), np.float64(7.055265349382997)], [np.float64(-1.74), np.float64(-2.56), np.float64(-2.0774999999999997), np.float64(1.84), np.float64(-0.09999999999999998), np.float64(-0.3), np.float64(7.055265349382997)], [np.float64(1.92), np.float64(2.75), np.float64(1.59), np.float64(1.6433333333333333), np.float64(1.59), np.float64(1.27), np.float64(7.055265349382997)], [np.float64(-1.44), np.float64(-5.03), np.float64(1.4449999999999998), np.float64(0.4000000000000001), np.float64(-0.588), np.float64(-0.55), np.float64(7.055265349382997)], [np.float64(-1.4433333333333334), np.float64(-0.020000000000000018), np.float64(-0.0366666666666667), np.float64(-0.5499999999999999), np.float64(0.64), np.float64(-2.71), np.float64(7.055265349382997)], [np.float64(-1.23), np.float64(-1.635), np.float64(-0.24), np.float64(1.1033333333333333), np.float64(-2.215), np.float64(-2.93), np.float64(7.055265349382997)]] +['GGATTMTTTCA', 'CTGGAMAAAGC', 'GGGCCMTTACC', 'GGTGGMTGAAT', 'GGTTAMCGCGT', 'TGTGGMGAAAC', 'AGAACMCTTTC', 'AAATGMGATTT', 'AGTAGMTTGAT', 'ACTTAMCCGGT'] +NN general model scores: 0.5,0.375,1.0,0.75,0.75 +Cross validation accuracy: 0.68 (+/- 0.44) Finished training rm -rf testdata mv testdata_save testdata @@ -1079,12 +1115,14 @@ dpkg-buildpackage: info: binary-only upload (no source included) dpkg-genchanges: info: not including original source code in upload I: copying local configuration +I: user script /srv/workspace/pbuilder/963157/tmp/hooks/B01_cleanup starting +I: user script /srv/workspace/pbuilder/963157/tmp/hooks/B01_cleanup finished I: unmounting dev/ptmx filesystem I: unmounting dev/pts filesystem I: unmounting dev/shm filesystem I: unmounting proc filesystem I: unmounting sys filesystem I: cleaning the build env -I: removing directory /srv/workspace/pbuilder/4004580 and its subdirectories -I: Current time: Tue Mar 4 03:42:25 -12 2025 -I: pbuilder-time-stamp: 1741102945 +I: removing directory /srv/workspace/pbuilder/963157 and its subdirectories +I: Current time: Tue Apr 7 12:07:20 +14 2026 +I: pbuilder-time-stamp: 1775513240